{ "type": "genome", "identifier": "GCF_019797845.1", "organism": "Symbiopectobacterium purcellii", "title": "Symbiopectobacterium purcellii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Liverpool", "publication": [ {} ], "properties": { "assembly_accession": "GCF_019797845.1", "bioproject": "PRJNA224116", "biosample": "SAMN20924929", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2871826", "species_taxid": "2871826", "organism_name": "Symbiopectobacterium purcellii", "infraspecific_name": "strain=SyEd1", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/08/30", "asm_name": "ASM1979784v1", "asm_submitter": "University of Liverpool", "gbrs_paired_asm": "GCA_019797845.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/797/845/GCF_019797845.1_ASM1979784v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4942431", "genome_size_ungapped": "4942431", "gc_percent": "52.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_019797845.1-RS_2024_06_23", "annotation_date": "2024-06-23", "total_gene_count": "4648", "protein_coding_gene_count": "4253", "non_coding_gene_count": "107", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-08-30", "dateModified": "2021-08-30", "datePublished": "2021-08-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Symbiopectobacterium purcellii" ], "sample_taxid": [ "2871826" ], "sample_host_organism": [ "Empoasca decipiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: Liverpool" ], "sample_host_location_id": [], "data_size": "1.401 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4942431", "Number of Sequences": "1", "Longest Sequences (bp)": "4942431", "N50 (bp)": "4942431", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.5", "Number of CDSs": "4670", "Average Protein Length": "301.6", "Coding Ratio (%)": "85.5", "Number of rRNAs": "21", "Number of tRNAs": "73", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pectobacterium polaris", "strain": "strain=NIBIO1006", "accession": "GCA_002307355.1", "taxid": 2042057, "species_taxid": 2042057, "relation_to_type": "type", "validated": true, "ani": 79.5577, "matched_fragments": 557, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium colocasium", "strain": "strain=LJ1", "accession": "GCA_020181655.1", "taxid": 2878098, "species_taxid": 2878098, "relation_to_type": "type", "validated": true, "ani": 79.422, "matched_fragments": 544, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dickeya fangzhongdai", "strain": "strain=DSM 101947", "accession": "GCA_002812485.1", "taxid": 1778540, "species_taxid": 1778540, "relation_to_type": "type", "validated": true, "ani": 79.4216, "matched_fragments": 538, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium actinidiae", "strain": "strain=KKH3", "accession": "GCA_000803315.1", "taxid": 1507808, "species_taxid": 1507808, "relation_to_type": "type", "validated": true, "ani": 79.3338, "matched_fragments": 561, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium parvum", "strain": "strain=s0421", "accession": "GCA_900195285.2", "taxid": 2778550, "species_taxid": 2778550, "relation_to_type": "type", "validated": true, "ani": 79.2828, "matched_fragments": 546, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium brasiliense", "strain": "strain=LMG 21371", "accession": "GCA_000754695.1", "taxid": 180957, "species_taxid": 180957, "relation_to_type": "type", "validated": true, "ani": 79.2787, "matched_fragments": 554, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brenneria nigrifluens", "strain": "strain=ATCC 13028", "accession": "GCA_005484965.1", "taxid": 55210, "species_taxid": 55210, "relation_to_type": "type", "validated": true, "ani": 79.2618, "matched_fragments": 557, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium fontis", "strain": "strain=M022", "accession": "GCA_000803215.1", "taxid": 2558042, "species_taxid": 2558042, "relation_to_type": "type", "validated": true, "ani": 79.2473, "matched_fragments": 503, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brenneria roseae subsp. americana", "strain": "strain=LMG 27715", "accession": "GCA_003115815.1", "taxid": 1508507, "species_taxid": 1509241, "relation_to_type": "type", "validated": true, "ani": 79.2024, "matched_fragments": 525, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium betavasculorum", "strain": "strain=NCPPB 2795", "accession": "GCA_000749845.1", "taxid": 55207, "species_taxid": 55207, "relation_to_type": "type", "validated": true, "ani": 79.1998, "matched_fragments": 508, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium punjabense", "strain": "strain=SS95", "accession": "GCA_003028395.1", "taxid": 2108399, "species_taxid": 2108399, "relation_to_type": "type", "validated": true, "ani": 79.1783, "matched_fragments": 500, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium atrosepticum", "strain": "strain=NCPPB 549", "accession": "GCA_000749905.1", "taxid": 29471, "species_taxid": 29471, "relation_to_type": "type", "validated": true, "ani": 79.1395, "matched_fragments": 533, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium zantedeschiae", "strain": "strain=9M", "accession": "GCA_004137795.1", "taxid": 2034769, "species_taxid": 2034769, "relation_to_type": "type", "validated": true, "ani": 79.1146, "matched_fragments": 520, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dickeya fangzhongdai", "strain": "strain=CGMCC 1.15464", "accession": "GCA_014642955.1", "taxid": 1778540, "species_taxid": 1778540, "relation_to_type": "type", "validated": true, "ani": 79.0752, "matched_fragments": 524, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brenneria nigrifluens", "strain": "strain=LMG 2694", "accession": "GCA_003115835.1", "taxid": 55210, "species_taxid": 55210, "relation_to_type": "type", "validated": true, "ani": 79.0538, "matched_fragments": 541, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dickeya undicola", "strain": "strain=2B12", "accession": "GCA_000784735.1", "taxid": 1577887, "species_taxid": 1577887, "relation_to_type": "type", "validated": true, "ani": 79.0168, "matched_fragments": 458, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia rhizosphaerae", "strain": "strain=KUDC3025", "accession": "GCA_009817885.1", "taxid": 2597702, "species_taxid": 2597702, "relation_to_type": "type", "validated": true, "ani": 79.0099, "matched_fragments": 402, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia entomophila", "strain": "strain=A1", "accession": "GCA_021462285.1", "taxid": 42906, "species_taxid": 42906, "relation_to_type": "type", "validated": true, "ani": 78.9484, "matched_fragments": 402, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dickeya zeae", "strain": "strain=NCPPB 2538", "accession": "GCA_000406165.1", "taxid": 204042, "species_taxid": 204042, "relation_to_type": "type", "validated": true, "ani": 78.945, "matched_fragments": 464, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia rubidaea", "strain": "strain=FDAARGOS_926", "accession": "GCA_016026735.1", "taxid": 61652, "species_taxid": 61652, "relation_to_type": "type", "validated": true, "ani": 78.9188, "matched_fragments": 407, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lonsdalea britannica", "strain": "strain=LMG 26267", "accession": "GCA_002111595.1", "taxid": 1082704, "species_taxid": 1082704, "relation_to_type": "type", "validated": true, "ani": 78.7821, "matched_fragments": 360, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shigella sonnei", "strain": "strain=NCTC12984", "accession": "GCA_900457155.1", "taxid": 624, "species_taxid": 624, "relation_to_type": "type", "validated": true, "ani": 78.7281, "matched_fragments": 302, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia rubidaea", "strain": "strain=NBRC 103169", "accession": "GCA_001598675.1", "taxid": 61652, "species_taxid": 61652, "relation_to_type": "type", "validated": true, "ani": 78.6387, "matched_fragments": 397, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Escherichia coli", "strain": "strain=ATCC 11775", "accession": "GCA_003697165.2", "taxid": 562, "species_taxid": 562, "relation_to_type": "neotype", "validated": true, "ani": 78.6022, "matched_fragments": 313, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lonsdalea iberica", "strain": "strain=LMG 26264", "accession": "GCA_002111585.1", "taxid": 1082703, "species_taxid": 1082703, "relation_to_type": "type", "validated": true, "ani": 78.5883, "matched_fragments": 341, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia bockelmannii", "strain": "strain=S3", "accession": "GCA_008011855.1", "taxid": 2703793, "species_taxid": 2703793, "relation_to_type": "type", "validated": true, "ani": 78.5243, "matched_fragments": 383, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia nevei", "strain": "strain=S15", "accession": "GCA_008364245.1", "taxid": 2703794, "species_taxid": 2703794, "relation_to_type": "type", "validated": true, "ani": 78.5016, "matched_fragments": 412, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kluyvera intermedia", "strain": "strain=NCTC12125", "accession": "GCA_900635475.1", "taxid": 61648, "species_taxid": 61648, "relation_to_type": "suspected-type", "validated": true, "ani": 78.4148, "matched_fragments": 315, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia rubidaea", "strain": "strain=CIP 103234", "accession": "GCA_001304675.1", "taxid": 61652, "species_taxid": 61652, "relation_to_type": "type", "validated": true, "ani": 78.3941, "matched_fragments": 379, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 78.2724, "matched_fragments": 329, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter sakazakii", "strain": "strain=ATCC 29544", "accession": "GCA_001971035.1", "taxid": 28141, "species_taxid": 28141, "relation_to_type": "type", "validated": true, "ani": 78.2596, "matched_fragments": 296, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Escherichia coli", "strain": "strain=ATCC 11775", "accession": "GCA_000734955.1", "taxid": 562, "species_taxid": 562, "relation_to_type": "neotype", "validated": true, "ani": 78.2211, "matched_fragments": 293, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kluyvera intermedia", "strain": "strain=NBRC 102594", "accession": "GCA_001598315.1", "taxid": 61648, "species_taxid": 61648, "relation_to_type": "suspected-type", "validated": true, "ani": 77.8515, "matched_fragments": 297, "total_fragments": 1647, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015762685.1", "gtdb_species": "s__Symbiopectobacterium sp015762685", "ani": 92.4855, "matched_fragments": 1276, "total_fragments": 1647, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Symbiopectobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_018777385.1", "gtdb_species": "s__Symbiopectobacterium endolongispinus", "ani": 92.0499, "matched_fragments": 1261, "total_fragments": 1647, "gtdb_taxonomy": 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